Contacts of the strand formed by residues 147 - 151 (chain C) in PDB entry 7KHE
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with SER 147 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30C ILE* 3.5 23.6 - - - +
31C GLN* 3.8 9.3 + - - -
145C ILE 3.6 2.8 + - - -
146C VAL* 1.3 79.3 - - - +
148C GLN* 1.3 59.3 + - - +
453C ILE* 3.9 12.1 - - - +
454C ARG 3.5 12.6 - - - -
455C SER* 4.2 13.5 - - - +
527C LYS 5.3 0.7 + - - -
529C ARG 3.4 13.3 + - - -
530C ILE* 3.5 16.7 - - - -
531C SER 2.9 23.1 + - - -
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Residues in contact with GLN 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146C VAL 4.6 0.2 - - - +
147C SER* 1.3 74.1 - - - +
149C LEU* 1.3 68.1 + - - +
150C HIS* 3.9 4.3 + - + +
452C ARG 3.8 0.9 - - - +
453C ILE* 3.6 2.1 - - - -
454C ARG* 2.9 63.5 + - + +
459C MET* 4.0 6.0 - - - +
511C LEU* 3.5 29.6 - - + +
530C ILE* 4.6 1.3 - - - -
531C SER 3.1 12.3 - - - +
533C LEU 3.0 23.3 + - - +
534C GLY 4.9 0.4 - - - -
535C PRO* 3.0 31.6 + - - +
536C GLY 3.9 2.4 + - - -
537C GLY* 3.9 11.9 - - - +
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Residues in contact with LEU 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148C GLN* 1.3 75.3 + - - +
150C HIS* 1.3 63.9 + - - +
448C LEU* 4.6 16.2 - - + -
451C ARG* 3.2 55.9 + - + +
452C ARG 3.5 9.4 - - - +
453C ILE* 3.5 26.9 - - + +
530C ILE* 3.5 21.1 - - + +
531C SER 2.9 17.5 + - - +
532C ALA* 3.8 18.2 - - + +
537C GLY* 5.5 0.9 - - - -
538C LEU* 6.0 1.2 - - - +
554C HIS* 5.9 1.8 - - - +
558C VAL* 6.0 4.0 - - + -
587C LEU* 5.9 1.1 - - + -
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Residues in contact with HIS 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148C GLN* 4.1 11.9 - - - +
149C LEU* 1.3 76.8 - - - +
151C ARG* 1.3 87.8 + - - +
152C SER 3.3 0.2 + - - -
153C PRO* 4.6 14.4 - - + -
179C TYR* 4.6 11.4 - + - -
451C ARG* 3.9 8.3 - - - +
452C ARG* 2.9 47.0 + - - +
454C ARG* 3.0 51.4 + - + +
536C GLY 4.0 20.1 + - - +
537C GLY* 5.3 2.2 - - - -
538C LEU* 6.3 3.1 - - - -
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Residues in contact with ARG 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150C HIS* 1.3 89.3 + - - +
152C SER* 1.3 67.4 + - - +
153C PRO* 3.8 0.3 - - - +
156C PHE* 4.3 24.6 - - + +
175C ARG* 3.5 37.9 - - - +
177C ILE* 4.7 16.6 - - + +
183C TRP* 5.6 4.4 - - - -
445C ILE* 3.5 48.9 - - - +
450C ASN 3.7 13.0 - - - +
451C ARG* 3.7 12.5 - - - +
538C LEU* 5.6 12.3 - - + -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il